ppiPre-package: Predicting protein-protein interactions

In ppiPre: Predict Protein-Protein Interactions Based on Functional and Topological Similarities

Description

Predicting protein-protein interactions based on functional and topologic similarities

Details

This package integrates functions for computing similarities between proteins based on their GO annotation, KEGG annotation and PPI network topology. It integrates seven features(TCSS, IntelliGO, Wang, KEGG, Jaccard, RA and AA) to predict PPIs using an SVM classifier. Some internal functions to manipulate GO.db are re-used from R package GOSemSim authored by Guangchuang Yu <[e-mail]>.

Package:	ppiPre
Type:	Package
Version:	1.9
Date:	2015-07-21
Depends:	R (>= 3.1.0)
Imports:	AnnotationDbi, igraph, e1071, GOSemSim, GO.db
Enhances:	org.Sc.sgd.db, org.Ag.eg.db, org.Xl.eg.db, org.Ss.eg.db,
	org.At.tair.db, org.Bt.eg.db, org.Ce.eg.db, org.Cf.eg.db,
	org.Dm.eg.db, org.Dr.eg.db, org.EcK12.eg.db, org.EcSakai.eg.db,
	org.Gg.eg.db, org.Mm.eg.db, org.Mmu.eg.db, org.Pf.plasmo.db,
	org.Pt.eg.db, org.Rn.eg.db, KEGG.db, org.Hs.eg.db
License:	GPL-2
LazyLoad:	yes

Author(s)

Yue Deng, Rongjie Shao, Gang Wang, Yuanjun Sun Maintainer: Yue Deng <[e-mail]>

See Also

GOKEGGSims IntelliGOGeneSim TCSSGeneSim SVMPredict TopologicSims

ppiPre documentation built on May 30, 2017, 4:33 a.m.